Amy2, CPTAC-3891 - CPTAC Assay Portal (original) (raw)

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We would like to acknowledge the National Cancer Institute’s Clinical Proteomic Tumor Analysis Consortium (CPTAC) Assay Portal (assays.cancer.gov) for developing assays and establishing criteria for the assays described in this publication.

Protein Sequence hover to view complete sequence

non-CPTAC-3891: View additional GSEYFGNGR data

10 20 30 40 50
MKFVLLLSLI GFCWAQYDPH TSDGRTAIVH LFEWRWVDIA KECERYLAPK
60 70 80 90 100
GFGGVQVSPP NENVVVHNPS RPWWERYQPI SYKICTRSGN EDEFRDMVTR
110 120 130 140 150
CNNVGVRIYV DAVINHMCGA GNPAGTSSTC GSYLNPNNRE FPAVPYSAWD
160 170 180 190 200
FNDNKCNGEI DNYNDAYQVR NCRLTGLLDL ALEKDYVRTK VADYMNHLID
210 220 230 240 250
IGVAGFRLDA AKHMWPGDIK AVLDKLHNLN TKWFSQGSRP FIFQEVIDLG
260 270 280 290 300
GEAIKGSEYF GNGRVTEFKY GAKLGTVIRK WNGEKMSYLK NWGEGWGLVP
310 320 330 340 350
SDRALVFVDN HDNQRGHGAG GSSILTFWDA RMYKMAVGFM LAHPYGFTRV
360 370 380 390 400
MSSYRWNRNF QNGKDQNDWI GPPNNNGVTK EVTINADTTC GNDWVCEHRW
410 420 430 440 450
RQIRNMVAFR NVVNGQPFSN WWDNNSNQVA FSRGNRGFIV FNNDDWALSA
460 470 480 490 500
TLQTGLPAGT YCDVISGDKV DGNCTGLRVN VGSDGKAHFS ISNSAEDPFI
508
AIHADSKL

Data source: UniProt

Position of Targeted Peptide Analytes Relative to SNPs, Isoforms, and PTMs

Uniprot Database Entry PhosphoSitePlus ®

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Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for non-CPTAC-3891 Collapse assay details

Data source: Panorama

Official Gene Symbol

Amy2

Peptide Sequence

GSEYFGNGR

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

256

Peptide End

264

CPTAC ID

non-CPTAC-3891

Peptide Molecular Mass

985.4254

Species

Mus musculus (Mouse)

Assay Type

Direct MRM

Matrix

Plasma

Submitting Laboratory

UVic-Genome BC Proteomics Centre

Submitting Lab PI

Christoph Borchers

Publication

View Details (opens in a new window)

Molecular phenotyping of laboratory mouse strains using 500 multiple reaction monitoring mass spectrometry plasma assays. Michaud SA, Sinclair NJ, Petrošová H, Palmer AL, Pistawka AJ, Zhang S, Hardie DB, Mohammed Y Eshghi A1, Richard VR, Sickmann A, Borchers CH. Commun Biol. 2018 Jun 27;1:78. doi: 10.1038/s42003-018-0087-6. eCollection 2018.

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument

Agilent 6490/6495 QQQ

Internal Standard

synthetic peptide

Peptide Standard Purity

>80%

Peptide Standard Label Type

13C and 15N at C-terminus R

LC

1290 LC (Agilent)

Column Packing

Zorbax Eclipse Plus C18, 1.8 µm

Column Dimensions

2.1 x 150 mm

Flow Rate

400 µL/min

Chromatograms

Data source: Panorama

Response Curves

Data source: Panorama

Retrieving Data

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Repeatability

Data source: Panorama

| | Average intra-assay CV(within day CV) | Average inter-assay CV(between day CV) | Total CVequation | n= | | | | | | | | | | | ---------------------------------------- | -------------------------------------- | --------------------------------------------------------------------------------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | | Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High | | b4 (1+) | 58 | 14.6 | 17.1 | 54.3 | 18.5 | 18.5 | 79.5 | 23.6 | 25.2 | 15 | 15 | 15 | | b3 (1+) | 29 | 10 | 9.9 | 29.9 | 12.6 | 12.4 | 41.7 | 16.1 | 15.9 | 15 | 15 | 15 | | y4 (1+) | 17.2 | 9.9 | 9.7 | 23 | 13 | 9.4 | 28.7 | 16.3 | 13.5 | 15 | 15 | 15 | | y5 (1+) | 11.6 | 4.8 | 10.3 | 11.8 | 8.9 | 8.9 | 16.5 | 10.1 | 13.6 | 15 | 15 | 15 | | y6 (1+) | 19.4 | 10.2 | 6.6 | 23.7 | 14.4 | 9.1 | 30.6 | 17.6 | 11.2 | 15 | 15 | 15 | | sum | 6.9 | 4.1 | 4.2 | 12 | 8.2 | 5.2 | 13.8 | 9.2 | 6.7 | 15 | 15 | 15 |

Additional Resources and Comments